Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 83 of 295
Found at i:24217973 original size:42 final size:41
Alignment explanation
Indices: 24217836--24217981 Score: 105
Period size: 42 Copynumber: 3.4 Consensus size: 41
24217826 TTAAAAGGTT
* * ***
24217836 ATGATTTTTAGTGGCGTTTGTAGGAAAAGTGTCGCTAAAGGTC
1 ATGA-TTTTAGTGGCGTTTGTAGG-GAAGTGCCGCTAAAAACC
* * * ***
24217879 GTGTTTTTTAGTGGCGTTTTTAGGGAAGTGCCGCTAAAGGTC
1 ATG-ATTTTAGTGGCGTTTGTAGGGAAGTGCCGCTAAAAACC
* *
24217921 GTGATCTTTAGTGGCGTTTGT-GGGAAAGTGCTGCTAAAAACC
1 ATGAT-TTTAGTGGCGTTTGTAGGG-AAGTGCCGCTAAAAACC
*
24217963 ATGACTTTTAGTAGCGTTT
1 ATGA-TTTTAGTGGCGTTT
24217982 TTTCATAAAC
Statistics
Matches: 86, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
41 4 0.05
42 61 0.71
43 21 0.24
ACGTcount: A:0.22, C:0.12, G:0.30, T:0.36
Consensus pattern (41 bp):
ATGATTTTAGTGGCGTTTGTAGGGAAGTGCCGCTAAAAACC
Found at i:24219755 original size:22 final size:22
Alignment explanation
Indices: 24219729--24219777 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
24219719 CAATGTTGTT
24219729 GTTATCATGTGGTGTAATATTA
1 GTTATCATGTGGTGTAATATTA
24219751 GTTATCATGTGGTGTAATATTA
1 GTTATCATGTGGTGTAATATTA
24219773 GTTAT
1 GTTAT
24219778 GCACTTGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.27, C:0.04, G:0.22, T:0.47
Consensus pattern (22 bp):
GTTATCATGTGGTGTAATATTA
Found at i:24219790 original size:22 final size:22
Alignment explanation
Indices: 24219729--24219840 Score: 95
Period size: 22 Copynumber: 5.0 Consensus size: 22
24219719 CAATGTTGTT
*
24219729 GTTATCATGTGGTGTAATATTA
1 GTTATCATGTGGTATAATATTA
*
24219751 GTTATCATGTGGTGTAATATTA
1 GTTATCATGTGGTATAATATTA
* *
24219773 GTTATGCACT-TGG-ATAATGTTGTT
1 GTTAT-CA-TGTGGTATAAT-AT-TA
*
24219797 GTTATCATGTGGTATAATACTA
1 GTTATCATGTGGTATAATATTA
* *
24219819 ATTATGCATTTGG-ATAATATTA
1 GTTAT-CATGTGGTATAATATTA
24219841 TTAATTTTTA
Statistics
Matches: 74, Mismatches: 9, Indels: 14
0.76 0.09 0.14
Matches are distributed among these distances:
22 45 0.61
23 17 0.23
24 12 0.16
ACGTcount: A:0.29, C:0.06, G:0.21, T:0.45
Consensus pattern (22 bp):
GTTATCATGTGGTATAATATTA
Found at i:24219798 original size:68 final size:68
Alignment explanation
Indices: 24219689--24219815 Score: 218
Period size: 68 Copynumber: 1.9 Consensus size: 68
24219679 GATACTTTTA
*
24219689 ATGTGATGTAATATTAGTTATACACTTGGACAATGTTGTTGTTATCATGTGGTGTAATATTAGTT
1 ATGTGATGTAATATTAGTTATACACTTGGACAATGTTGTTGTTATCATGTGGTATAATATTAGTT
24219754 ATC
66 ATC
* * *
24219757 ATGTGGTGTAATATTAGTTATGCACTTGGATAATGTTGTTGTTATCATGTGGTATAATA
1 ATGTGATGTAATATTAGTTATACACTTGGACAATGTTGTTGTTATCATGTGGTATAATA
24219816 CTAATTATGC
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 55 1.00
ACGTcount: A:0.28, C:0.06, G:0.22, T:0.44
Consensus pattern (68 bp):
ATGTGATGTAATATTAGTTATACACTTGGACAATGTTGTTGTTATCATGTGGTATAATATTAGTT
ATC
Found at i:24219837 original size:68 final size:68
Alignment explanation
Indices: 24219697--24219840 Score: 209
Period size: 68 Copynumber: 2.1 Consensus size: 68
24219687 TAATGTGATG
* * *
24219697 TAATATTAGTTATACACTTGGACAATGTTGTTGTTATCATGTGGTGTAATATTAGTTATCATGTG
1 TAATATTAGTTATACACTTGGACAATGTTGTTGTTATCATGTGGTATAATACTAATTATCATGTG
*
24219762 GTG
66 GTA
* * *
24219765 TAATATTAGTTATGCACTTGGATAATGTTGTTGTTATCATGTGGTATAATACTAATTATGCATTT
1 TAATATTAGTTATACACTTGGACAATGTTGTTGTTATCATGTGGTATAATACTAATTAT-CATGT
24219830 GG-A
65 GGTA
24219833 TAATATTA
1 TAATATTA
24219841 TTAATTTTTA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
68 62 0.91
69 6 0.09
ACGTcount: A:0.29, C:0.07, G:0.19, T:0.44
Consensus pattern (68 bp):
TAATATTAGTTATACACTTGGACAATGTTGTTGTTATCATGTGGTATAATACTAATTATCATGTG
GTA
Found at i:24220256 original size:20 final size:19
Alignment explanation
Indices: 24220212--24220257 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
24220202 CATCCAAACA
24220212 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
*
24220231 CTAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCA-TTT
24220251 CCAGAAA
1 CCAGAAA
24220258 TCATTTTCCG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.26
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:24220277 original size:14 final size:14
Alignment explanation
Indices: 24220241--24220278 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
24220231 CTAGAAAAGT
*
24220241 AAATCATTTTCCAG
1 AAATCATTTTCCAA
24220255 AAATCATTTTCCGAA
1 AAATCATTTTCC-AA
24220270 AAAT-ATTTT
1 AAATCATTTT
24220279 ACTGGCAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.39
Consensus pattern (14 bp):
AAATCATTTTCCAA
Found at i:24220478 original size:57 final size:57
Alignment explanation
Indices: 24220417--24220560 Score: 139
Period size: 57 Copynumber: 2.5 Consensus size: 57
24220407 TCAAAGTCTC
* * * *
24220417 GCCACGAAGGCATCCTTTTAACAAAGTTTGCCATAA-GGCATTCATTTAACTGAA-ATA
1 GCCACAAAGGCATCCTTTTAACAAAGATTGCCACAAGGGC-TTCATTTAAC-AAAGATA
* * * * * *
24220474 GCCACAAAGACACCCTTTTAATAGAGATTGCCACAAGGGCTTCCTTTAACAAAGATT
1 GCCACAAAGGCATCCTTTTAACAAAGATTGCCACAAGGGCTTCATTTAACAAAGATA
* * *
24220531 GCCACAAAGGCTTCCTTTTAATAGAGATTG
1 GCCACAAAGGCATCCTTTTAACAAAGATTG
24220561 TCATAAAGAC
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
56 2 0.03
57 67 0.93
58 3 0.04
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (57 bp):
GCCACAAAGGCATCCTTTTAACAAAGATTGCCACAAGGGCTTCATTTAACAAAGATA
Found at i:24220506 original size:29 final size:29
Alignment explanation
Indices: 24220474--24220594 Score: 106
Period size: 29 Copynumber: 4.3 Consensus size: 29
24220464 AACTGAAATA
**
24220474 GCCACAAAGACACCCTTTTAATAGAGATT
1 GCCACAAAGACTTCCTTTTAATAGAGATT
* * * *
24220503 GCCACAAGGGCTTCC-TTTAACAAAGATT
1 GCCACAAAGACTTCCTTTTAATAGAGATT
*
24220531 GCCACAAAGGCTTCCTTTTAATAGAGATT
1 GCCACAAAGACTTCCTTTTAATAGAGATT
* * * * *
24220560 GTCATAAAGACGT-CTTTT--CAGAGATA
1 GCCACAAAGACTTCCTTTTAATAGAGATT
24220586 GCCACAAAG
1 GCCACAAAG
24220595 GCTCATTTTT
Statistics
Matches: 74, Mismatches: 17, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
26 13 0.18
28 30 0.41
29 31 0.42
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (29 bp):
GCCACAAAGACTTCCTTTTAATAGAGATT
Found at i:24222190 original size:23 final size:25
Alignment explanation
Indices: 24222146--24222191 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
24222136 TATTTTGACT
*
24222146 ATATATTTTAAAATTTTATAAAAAA
1 ATATATTTTAAAACTTTATAAAAAA
24222171 ATAT-TTTTAAAACTTT-TAAAA
1 ATATATTTTAAAACTTTATAAAA
24222192 GTATTTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 11 0.55
25 4 0.20
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
ATATATTTTAAAACTTTATAAAAAA
Found at i:24224766 original size:12 final size:12
Alignment explanation
Indices: 24224749--24224792 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
24224739 CAAAGGAAAA
*
24224749 TCCTAATCTAAT
1 TCCTAATATAAT
* *
24224761 TCCTAATTTAAAG
1 TCCTAATAT-AAT
24224774 TCCTAATATAAT
1 TCCTAATATAAT
24224786 TCCTAAT
1 TCCTAAT
24224793 TTAAAGTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
12 17 0.63
13 10 0.37
ACGTcount: A:0.36, C:0.20, G:0.02, T:0.41
Consensus pattern (12 bp):
TCCTAATATAAT
Found at i:24224778 original size:25 final size:25
Alignment explanation
Indices: 24224749--24224799 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
24224739 CAAAGGAAAA
*
24224749 TCCTAATCTAATTCCTAATTTAAAG
1 TCCTAATATAATTCCTAATTTAAAG
24224774 TCCTAATATAATTCCTAATTTAAAG
1 TCCTAATATAATTCCTAATTTAAAG
24224799 T
1 T
24224800 TTATAAGGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.18, G:0.04, T:0.41
Consensus pattern (25 bp):
TCCTAATATAATTCCTAATTTAAAG
Found at i:24224779 original size:13 final size:13
Alignment explanation
Indices: 24224761--24224799 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
24224751 CTAATCTAAT
24224761 TCCTAATTTAAAG
1 TCCTAATTTAAAG
* *
24224774 TCCTAATAT-AAT
1 TCCTAATTTAAAG
24224786 TCCTAATTTAAAG
1 TCCTAATTTAAAG
24224799 T
1 T
24224800 TTATAAGGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.41
Consensus pattern (13 bp):
TCCTAATTTAAAG
Found at i:24229443 original size:25 final size:25
Alignment explanation
Indices: 24229415--24229465 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
24229405 AAAAGGAAAA
**
24229415 TCCTAATCTAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
24229440 TCCTAATAGAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
24229465 T
1 T
24229466 TTATAAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:24231118 original size:12 final size:13
Alignment explanation
Indices: 24231103--24231135 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
24231093 GTTTATATTT
24231103 AAAATGTTAC-TA
1 AAAATGTTACTTA
*
24231115 AAAATGTTACTTC
1 AAAATGTTACTTA
24231128 AAAATGTT
1 AAAATGTT
24231136 TATATAGCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (13 bp):
AAAATGTTACTTA
Found at i:24234137 original size:15 final size:15
Alignment explanation
Indices: 24234113--24234146 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
24234103 CTACATCAGT
24234113 GACCCGAAAACCATC
1 GACCCGAAAACCATC
*
24234128 GACCCTAAAACCATC
1 GACCCGAAAACCATC
24234143 GACC
1 GACC
24234147 TTAACTATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.38, C:0.41, G:0.12, T:0.09
Consensus pattern (15 bp):
GACCCGAAAACCATC
Found at i:24236256 original size:6 final size:7
Alignment explanation
Indices: 24236224--24236254 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
24236214 TCATATTTGT
24236224 AAAATAA
1 AAAATAA
24236231 AAAATAA
1 AAAATAA
24236238 AAAATAA
1 AAAATAA
24236245 AAAATAA
1 AAAATAA
24236252 AAA
1 AAA
24236255 TATTTATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AAAATAA
Found at i:24237336 original size:26 final size:25
Alignment explanation
Indices: 24237288--24237347 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
24237278 TTATTTCATT
* *
24237288 AAATAAAA-A-ATTTTAAAATATAA
1 AAATAAAATATATTTAAAAACATAA
*
24237311 TAAATTAAATATATTTAAAAACATAA
1 -AAATAAAATATATTTAAAAACATAA
24237337 AAATAAAATAT
1 AAATAAAATAT
24237348 TAAAACAAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 7 0.23
25 11 0.37
26 12 0.40
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (25 bp):
AAATAAAATATATTTAAAAACATAA
Found at i:24249577 original size:2 final size:2
Alignment explanation
Indices: 24249570--24249609 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
24249560 TAACTAGCTT
* * *
24249570 TA TA TA TA TA TA AA TA TA TA AA TA TA TA AA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24249610 ACACCTTCCT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (2 bp):
TA
Found at i:24249586 original size:8 final size:8
Alignment explanation
Indices: 24249570--24249605 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
24249560 TAACTAGCTT
*
24249570 TATATATA
1 TATAAATA
24249578 TATAAATA
1 TATAAATA
24249586 TATAAATA
1 TATAAATA
24249594 TATAAATA
1 TATAAATA
24249602 TATA
1 TATA
24249606 TATAACACCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
TATAAATA
Found at i:24257055 original size:17 final size:17
Alignment explanation
Indices: 24257033--24257074 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
24257023 TACTATAATG
*
24257033 GCAAAAGAATGAAGAGT
1 GCAAAAGAACGAAGAGT
24257050 GCAAAAGAACGAAGAGT
1 GCAAAAGAACGAAGAGT
*
24257067 ACAAAAGA
1 GCAAAAGA
24257075 TTGAGATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.57, C:0.10, G:0.26, T:0.07
Consensus pattern (17 bp):
GCAAAAGAACGAAGAGT
Found at i:24260540 original size:288 final size:286
Alignment explanation
Indices: 24260014--24260594 Score: 1103
Period size: 288 Copynumber: 2.0 Consensus size: 286
24260004 AAATAAAACA
24260014 ATAAAAATCACTATTTAAGAAAAACAAAATATTTAGAAATCGAATCTAAAATTGATGAAAAATTA
1 ATAAAAATCACTATTTAAGAAAAACAAAATATTTAGAAATCGAATCTAAAATTGATGAAAAATTA
24260079 TATATAAATACTTTACATACTTATAATCTAATTGTTGAACATGTATATAATAAATGCCATTTGTA
66 TATATAAATACTTTACATACTTATAATCTAATTGTTGAACATGTATATAATAAATGCCATTTGTA
24260144 TATAAAGATTATTATTATTATTTTTTTAACAATCTCAATATAGATTTTTAGGGGTGAACAAAATT
131 TATAAAGATTATTATTATTATTTTTTTAACAATCTCAATATAGATTTTTAGGGGTGAACAAAATT
24260209 CGATTCTATTCGAAAAATTCGATAAAAAATTTAAATTTTGAATTAAGTAGTTTGAGTTATTTGAG
196 CGATTCTATTCGAAAAATTCGATAAAAAATTTAAATTTTGAATTAAGTAGTTTGAGTTATTTGAG
24260274 TTAATCAAGTTATTCGGATCAACTAG
261 TTAATCAAGTTATTCGGATCAACTAG
24260300 ATAAAAATCACTATTTAAGAAAAACAAAATATTTAGAAATCGAATCTAAAATTGATGAAAAATTA
1 ATAAAAATCACTATTTAAGAAAAACAAAATATTTAGAAATCGAATCTAAAATTGATGAAAAATTA
24260365 TATATAAATACTTTACAACTTTACTTATAATCTAATTGTTGAACATGTATATAATAAATGCCATT
66 TATATAAATACTTTAC-A---TACTTATAATCTAATTGTTGAACATGTATATAATAAATGCCATT
*
24260430 TGTATATAAAGATTATTCTT-TT-TTTTTTTAACAATCTCAATATAGATTTTTAGGGGTGAACAA
127 TGTATATAAAGATTATTATTATTATTTTTTTAACAATCTCAATATAGATTTTTAGGGGTGAACAA
24260493 AATTCGATTCTATTCGAAAAATTCGATAAAAAATTTAAATTTTGAATTAAGTAGTTTGAGTTATT
192 AATTCGATTCTATTCGAAAAATTCGATAAAAAATTTAAATTTTGAATTAAGTAGTTTGAGTTATT
24260558 TGAGTTAATCAAGTTATTCGGATCAACTAG
257 TGAGTTAATCAAGTTATTCGGATCAACTAG
24260588 ATAAAAA
1 ATAAAAA
24260595 ATTAAGTTTT
Statistics
Matches: 290, Mismatches: 1, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
286 81 0.28
287 1 0.00
288 143 0.49
289 2 0.01
290 63 0.22
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.38
Consensus pattern (286 bp):
ATAAAAATCACTATTTAAGAAAAACAAAATATTTAGAAATCGAATCTAAAATTGATGAAAAATTA
TATATAAATACTTTACATACTTATAATCTAATTGTTGAACATGTATATAATAAATGCCATTTGTA
TATAAAGATTATTATTATTATTTTTTTAACAATCTCAATATAGATTTTTAGGGGTGAACAAAATT
CGATTCTATTCGAAAAATTCGATAAAAAATTTAAATTTTGAATTAAGTAGTTTGAGTTATTTGAG
TTAATCAAGTTATTCGGATCAACTAG
Found at i:24262160 original size:22 final size:22
Alignment explanation
Indices: 24262132--24262176 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
24262122 CCAATGATTG
24262132 ACATAATTTCACCGCTTAAAAA
1 ACATAATTTCACCGCTTAAAAA
*
24262154 ACATAATTTCACTGCTTAAAAA
1 ACATAATTTCACCGCTTAAAAA
24262176 A
1 A
24262177 ATCCTTTAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.20, G:0.04, T:0.29
Consensus pattern (22 bp):
ACATAATTTCACCGCTTAAAAA
Found at i:24270657 original size:20 final size:19
Alignment explanation
Indices: 24270632--24270688 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
24270622 AATTAAATTA
24270632 AATTTAATATTAAGATAAT
1 AATTTAATATTAAGATAAT
24270651 CAATTTAATATTAA-ATTAAT
1 -AATTTAATATTAAGA-TAAT
* *
24270671 AAATTACTATTAAGATAA
1 AATTTAATATTAAGATAA
24270689 GTATTAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (19 bp):
AATTTAATATTAAGATAAT
Found at i:24291349 original size:28 final size:29
Alignment explanation
Indices: 24291317--24291415 Score: 107
Period size: 28 Copynumber: 3.5 Consensus size: 29
24291307 ATAATAAGCC
*
24291317 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
*
24291345 CGCACACTTAGTGC-TATATAATC-AACCT
1 CGCACACTTAGTGCTTACATAATCGAA-CT
* * *
24291373 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
24291402 CGCACACTTAGTGC
1 CGCACACTTAGTGC
24291416 CAATCTCATG
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
27 4 0.07
28 35 0.57
29 17 0.28
30 5 0.08
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:24293878 original size:43 final size:43
Alignment explanation
Indices: 24293831--24293970 Score: 156
Period size: 43 Copynumber: 3.3 Consensus size: 43
24293821 AATGTATTAG
** *
24293831 CACTAAGTGTGCGATACAATTATAGTTTTGACTAATTAATTGA
1 CACTAAGTGTGCGATACAATTATAGCCTCGACTAATTAATTGA
* * *
24293874 CACTAAGTGTGGGATACAATTATAGCCTCGGCTAATTAATTGG
1 CACTAAGTGTGCGATACAATTATAGCCTCGACTAATTAATTGA
* * * **
24293917 CACTAAGTGCGCGAAACAATTATAGCTTC-AGCTAATTAATCAA
1 CACTAAGTGTGCGATACAATTATAGCCTCGA-CTAATTAATTGA
*
24293960 CACTAAATGTG
1 CACTAAGTGTG
24293971 TGAGTTTGTT
Statistics
Matches: 80, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
43 80 1.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (43 bp):
CACTAAGTGTGCGATACAATTATAGCCTCGACTAATTAATTGA
Found at i:24310845 original size:17 final size:17
Alignment explanation
Indices: 24310823--24310860 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
24310813 TTGTTTAATT
24310823 CAGCCTTTTCTTTCCAA
1 CAGCCTTTTCTTTCCAA
24310840 CAGCCTTTTCTTTCCAA
1 CAGCCTTTTCTTTCCAA
24310857 CAGC
1 CAGC
24310861 TTCATAGTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.18, C:0.37, G:0.08, T:0.37
Consensus pattern (17 bp):
CAGCCTTTTCTTTCCAA
Found at i:24313764 original size:43 final size:43
Alignment explanation
Indices: 24313590--24313762 Score: 147
Period size: 43 Copynumber: 4.0 Consensus size: 43
24313580 ACATAGGATT
* * *
24313590 TCGATATTTGATTTCGTGTACGACCACGTCTGGGACGTTGGCA
1 TCGATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
* * * *
24313633 TCGAT-TTGAGATTTACATGTAAGACCATGTCTGGGACATCGGCA
1 TCGATATT-TGA-TTACATGTAAGACCACGTCTGGGACGTTGGCA
* *** * *
24313677 TCG-TATGTGATTTTGTGTAAGACC-CTATCTTGGACAG-TGGCA
1 TCGATATTTGATTACATGTAAGACCAC-GTCTGGGAC-GTTGGCA
* *
24313719 TTGATATTTGATTACATGTAAGACCACGTCTGGGATGTTGGCA
1 TCGATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
24313762 T
1 T
24313763 TGTACAAGCT
Statistics
Matches: 97, Mismatches: 25, Indels: 16
0.70 0.18 0.12
Matches are distributed among these distances:
42 27 0.28
43 39 0.40
44 31 0.32
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (43 bp):
TCGATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
Found at i:24316750 original size:18 final size:19
Alignment explanation
Indices: 24316716--24316754 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
24316706 GATAAACTCA
*
24316716 TTATTATGTATGTAAGACT
1 TTATTATCTATGTAAGACT
24316735 TTATTATCTA-GTAAGACT
1 TTATTATCTATGTAAGACT
24316753 TT
1 TT
24316755 TCCTGTAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.31, C:0.08, G:0.13, T:0.49
Consensus pattern (19 bp):
TTATTATCTATGTAAGACT
Found at i:24332519 original size:13 final size:13
Alignment explanation
Indices: 24332491--24332531 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
24332481 ACTTTGTTCT
*
24332491 TTTTTTCTA-TTC
1 TTTTTTCTATTTA
24332503 TTTTTTCTATTTA
1 TTTTTTCTATTTA
24332516 TTTTATT-TATTTA
1 TTTT-TTCTATTTA
24332529 TTT
1 TTT
24332532 ATTTATTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 9 0.35
13 15 0.58
14 2 0.08
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTTTCTATTTA
Found at i:24332532 original size:12 final size:13
Alignment explanation
Indices: 24332510--24332538 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
24332500 TTCTTTTTTC
24332510 TATTTATTTTATT
1 TATTTATTTTATT
24332523 TATTTA-TTTATT
1 TATTTATTTTATT
24332535 TATT
1 TATT
24332539 ATAATAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TATTTATTTTATT
Found at i:24332555 original size:5 final size:5
Alignment explanation
Indices: 24332538--24332567 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
24332528 ATTTATTTAT
24332538 TATAA TAATAA TATAA TATAA TATAA TATA
1 TATAA T-ATAA TATAA TATAA TATAA TATA
24332568 TATTCTTAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:24336937 original size:49 final size:49
Alignment explanation
Indices: 24336786--24336961 Score: 146
Period size: 49 Copynumber: 3.6 Consensus size: 49
24336776 TGTGTGTGCT
*
24336786 AGTGTAAGACCTGTCTGGGACATGGCA-TCGACATCGATAG-AT-GAGAG-C
1 AGTGTAAGACCTGTCTGGGACATGGCATTAG-CATCGAT-GTATGGA-AGTC
* * * * ** * * * *
24336834 TAATATAAGACCTGCCTAGGACATGGCATCGGCTTC-AAGATATGCAAGTT
1 -AGTGTAAGACCTGTCTGGGACATGGCATTAGCATCGATG-TATGGAAGTC
*
24336884 AGTGTAAGACCTGTCTGGGACATGGCATTAGCCTCGATGTATGGAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATTAGCATCGATGTATGGAAGTC
* *
24336933 AGTGTAATACCTATCTGGGACATGGCATT
1 AGTGTAAGACCTGTCTGGGACATGGCATT
24336962 GACTTAGATG
Statistics
Matches: 99, Mismatches: 22, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
47 1 0.01
48 1 0.01
49 93 0.94
50 4 0.04
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATTAGCATCGATGTATGGAAGTC
Found at i:24343339 original size:54 final size:54
Alignment explanation
Indices: 24343277--24343383 Score: 187
Period size: 54 Copynumber: 2.0 Consensus size: 54
24343267 AACTTGAACA
*
24343277 GCTCAAGTTATCGATTGTGCTAAATTCGAGTATCCTAATACTTACCTTTGAGCT
1 GCTCAAGTTATCAATTGTGCTAAATTCGAGTATCCTAATACTTACCTTTGAGCT
* *
24343331 GCTCAAGTTATCAATTTTGCTAAATTTGAGTATCCTAATACTTACCTTTGAGC
1 GCTCAAGTTATCAATTGTGCTAAATTCGAGTATCCTAATACTTACCTTTGAGC
24343384 AGTTCACGAG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (54 bp):
GCTCAAGTTATCAATTGTGCTAAATTCGAGTATCCTAATACTTACCTTTGAGCT
Found at i:24345940 original size:25 final size:25
Alignment explanation
Indices: 24345888--24345940 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
24345878 ATAAAATAAC
* * * *
24345888 TTAAATACTAAAATGGATAGAAAAA
1 TTAAATACCAAAATGAAAACAAAAA
*
24345913 TTAAATACCAAAATGAAAACAAATA
1 TTAAATACCAAAATGAAAACAAAAA
24345938 TTA
1 TTA
24345941 TTCAATGGCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.25
Consensus pattern (25 bp):
TTAAATACCAAAATGAAAACAAAAA
Found at i:24349590 original size:210 final size:210
Alignment explanation
Indices: 24349034--24349658 Score: 934
Period size: 212 Copynumber: 3.0 Consensus size: 210
24349024 ATGAAAAACT
*
24349034 TAGAAAGGTTTAGCATATCAGTGTTGGACAAATGTCAGCATCCAAGATTGACTTGAGCCTGGGTA
1 TAGAAAGGTTTAGCATATCAGTGTTGGACAAATGTCAGCATCCAAGA-TCACTTGAGCCTGGGTA
* * *
24349099 ACATACCTCATACTGAATGAAGTAAAGAAAA-AAATTTGAAAAAACCACATTCAATGGGAAATAA
65 ACATAGCTCATACCGAATGAAGTAATGAAAACAAA-TTGAAAAAACCACATTCAATGGGAAATAA
*
24349163 AGTACATGAAAGAATTGAAGATGATTCTTTTTGCAATC-TTGGATTCAACCCAAGCAGTGAAGCA
129 AGTACATGAAAGAATTGAAGATCATTCTTTTTGCAA-CATTGGATTCAACCCAAGCAGTGAAGCA
24349227 AACAAATAAAAGATTCACC
193 AACAAAT-AAAGATTCACC
* *
24349246 TAGAAAGGTTTAGCATACCAGTGTTGGACAAAAGTCAGCATCCAAGAGTCACTTGAGCCTGGGTA
1 TAGAAAGGTTTAGCATATCAGTGTTGGACAAATGTCAGCATCCAAGA-TCACTTGAGCCTGGGTA
* * * *
24349311 ACATAGCTCATATCAAATGAAGTAATGAAAACAAACTGAAAAAACCACATTCAATGGGAAATGAA
65 ACATAGCTCATACCGAATGAAGTAATGAAAACAAATTGAAAAAACCACATTCAATGGGAAATAAA
* * *
24349376 GTACATGAGAGAACTGAAGATCATTCTTTTTGCAACATTGGATTCAACCCAAGCAGTGACGCAAA
130 GTACATGAAAGAATTGAAGATCATTCTTTTTGCAACATTGGATTCAACCCAAGCAGTGAAGCAAA
*
24349441 CAAATAAAGATTCACTT
195 CAAATAAAGATTCAC-C
* * * *
24349458 TA-AAAGGTTTAGCATATCAATGTTAGACAAATGTCAGCAACCAAGATCCAC-CGAGCCTGGGTA
1 TAGAAAGGTTTAGCATATCAGTGTTGGACAAATGTCAGCATCCAAGAT-CACTTGAGCCTGGGTA
* * *
24349521 ACATAGCTCATACCGAATGATGCAATGAAAACAAATTGAAAAAGCCACATTCAATGGGAAATAAA
65 ACATAGCTCATACCGAATGAAGTAATGAAAACAAATTGAAAAAACCACATTCAATGGGAAATAAA
* * *
24349586 GTACATGAAAGGATTGAATATCATCCTTTTTGCAACATTGGATTCAACCCAAGCAGTGAAGCAAA
130 GTACATGAAAGAATTGAAGATCATTCTTTTTGCAACATTGGATTCAACCCAAGCAGTGAAGCAAA
24349651 CAAATAAA
195 CAAATAAA
24349659 AGCTTCTCAT
Statistics
Matches: 374, Mismatches: 35, Indels: 10
0.89 0.08 0.02
Matches are distributed among these distances:
210 137 0.37
211 53 0.14
212 181 0.48
213 3 0.01
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.23
Consensus pattern (210 bp):
TAGAAAGGTTTAGCATATCAGTGTTGGACAAATGTCAGCATCCAAGATCACTTGAGCCTGGGTAA
CATAGCTCATACCGAATGAAGTAATGAAAACAAATTGAAAAAACCACATTCAATGGGAAATAAAG
TACATGAAAGAATTGAAGATCATTCTTTTTGCAACATTGGATTCAACCCAAGCAGTGAAGCAAAC
AAATAAAGATTCACC
Found at i:24353005 original size:43 final size:43
Alignment explanation
Indices: 24352944--24353028 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
24352934 TTACTAAAAT
*
24352944 TAGGATTTAGTCCTAAAACTTTGCTTTAAATAATTAATTAAAC
1 TAGGATTTAGTCCTAAAACTTTGCTTTAAATAAATAATTAAAC
24352987 TAGGATTTAGTCCTAAAACTTTGCTTTAAATAAATAATTAAA
1 TAGGATTTAGTCCTAAAACTTTGCTTTAAATAAATAATTAAA
24353029 GTATTAAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (43 bp):
TAGGATTTAGTCCTAAAACTTTGCTTTAAATAAATAATTAAAC
Found at i:24355491 original size:12 final size:12
Alignment explanation
Indices: 24355460--24355495 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
24355450 TATCAATTCC
* *
24355460 ATTATTATTATT
1 ATTATTACTACT
24355472 ATTATTACTACT
1 ATTATTACTACT
24355484 ATTATTACTACT
1 ATTATTACTACT
24355496 GTTGTTTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTATTACTACT
Found at i:24360922 original size:18 final size:20
Alignment explanation
Indices: 24360901--24360940 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
24360891 ATTAATTACC
24360901 AAAAAT-AG-CTTAATGGAT
1 AAAAATAAGCCTTAATGGAT
*
24360919 AAAAATAAGCCTTATTGGAT
1 AAAAATAAGCCTTAATGGAT
24360939 AA
1 AA
24360941 GGCAATTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 2 0.11
20 11 0.58
ACGTcount: A:0.50, C:0.07, G:0.15, T:0.28
Consensus pattern (20 bp):
AAAAATAAGCCTTAATGGAT
Found at i:24364712 original size:27 final size:27
Alignment explanation
Indices: 24364682--24364735 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
24364672 ATACGGAAGT
*
24364682 GTTCGACGATGAAATCGACAAGCGAAA
1 GTTCGACGATGAAATCAACAAGCGAAA
24364709 GTTCGACGATGAAATCAACAAGCGAAA
1 GTTCGACGATGAAATCAACAAGCGAAA
24364736 CTTTTCGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.43, C:0.19, G:0.24, T:0.15
Consensus pattern (27 bp):
GTTCGACGATGAAATCAACAAGCGAAA
Found at i:24364898 original size:47 final size:47
Alignment explanation
Indices: 24364837--24364966 Score: 179
Period size: 47 Copynumber: 2.8 Consensus size: 47
24364827 ATGCGAATAA
* * * * *
24364837 TACCTTGATTTGGCTACGGCCCATGATATAGGTATTTTGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTTCGAGAGAAGT
* * *
24364884 TACCTTGATTTGGCTACGGGCCATGGTATAGGTGCTTCGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTTCGAGAGAAGT
*
24364931 TACCTTGATTTGCCTACGGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
24364967 ATCAATTACG
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTTCGAGAGAAGT
Found at i:24386228 original size:7 final size:7
Alignment explanation
Indices: 24386216--24386431 Score: 71
Period size: 7 Copynumber: 30.3 Consensus size: 7
24386206 TTCTATTTTT
*
24386216 TTATATG
1 TTATATA
24386223 TTATATA
1 TTATATA
24386230 TTATATA
1 TTATATA
* *
24386237 CTATTTA
1 TTATATA
*
24386244 -TGT-TA
1 TTATATA
24386249 TTATAT-
1 TTATATA
*
24386255 TTTTATA
1 TTATATA
*
24386262 TGTAGAATA
1 T-TA-TATA
24386271 CTTATTATA
1 -TTA-TATA
24386280 TTAT-TA
1 TTATATA
24386286 TTAT-TA
1 TTATATA
24386292 TTAT-T-
1 TTATATA
24386297 TTATATA
1 TTATATA
24386304 TCCCTTATTATA
1 ----TTA-TATA
24386316 TTATAT-
1 TTATATA
24386322 TTCATTATA
1 TT-A-TATA
*
24386331 TTCTAT-
1 TTATATA
24386337 TTATATA
1 TTATATA
*
24386344 -TATTTA
1 TTATATA
*
24386350 TTACATA
1 TTATATA
*
24386357 TTATATT
1 TTATATA
24386364 TTACTATA
1 TTA-TATA
24386372 -TATCATA
1 TTAT-ATA
* *
24386379 ATAT-TT
1 TTATATA
*
24386385 TTTTATA
1 TTATATA
24386392 TTATTATA
1 TTA-TATA
24386400 TTATTATA
1 TTA-TATA
24386408 TTATATAA
1 TTATAT-A
24386416 TT-TATA
1 TTATATA
24386422 TTATTATA
1 TTA-TATA
24386430 TT
1 TT
24386432 TTTATTTGTA
Statistics
Matches: 160, Mismatches: 23, Indels: 51
0.68 0.10 0.22
Matches are distributed among these distances:
5 6 0.04
6 42 0.26
7 54 0.34
8 40 0.25
9 10 0.06
10 1 0.01
11 3 0.02
12 4 0.03
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (7 bp):
TTATATA
Found at i:24386255 original size:5 final size:5
Alignment explanation
Indices: 24386182--24386425 Score: 70
Period size: 5 Copynumber: 48.6 Consensus size: 5
24386172 AAATTTATCA
* * * * *
24386182 TATAT TTTAT TTTAT ATATAT T-TAT TCTAT TTTTT TATAT GT-TA- TATAT
1 TATAT TATAT TATAT -TATAT TATAT TATAT TATAT TATAT -TATAT TATAT
* *
24386231 TATA- TACTAT T-TAT GT-TAT TATAT T-T-T TATAT GTAGAA TACTTAT
1 TATAT TA-TAT TATAT -TATAT TATAT TATAT TATAT -TATAT TA-T-AT
* **
24386276 TATAT TATTAT TATTAT TATTT TATA- TATCCC T-TAT TATAT TATAT
1 TATAT TA-TAT TA-TAT TATAT TATAT TAT-AT TATAT TATAT TATAT
* * *
24386322 T-TCAT TATAT TCTAT T-TAT ATATAT T-TAT TACATAT TATAT TTTAC
1 TAT-AT TATAT TATAT TATAT -TATAT TATAT T--ATAT TATAT TATAT
* * *
24386368 TATA- TATCAT AATAT TTTTT TATAT TAT-T ATATTAT TATAT TATAT
1 TATAT TAT-AT TATAT TATAT TATAT TATAT -TA-TAT TATAT TATAT
*
24386414 AAT-T TATAT TAT
1 TATAT TATAT TAT
24386426 TATATTTTTA
Statistics
Matches: 181, Mismatches: 27, Indels: 62
0.67 0.10 0.23
Matches are distributed among these distances:
3 3 0.02
4 33 0.18
5 106 0.59
6 31 0.17
7 8 0.04
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:24386372 original size:51 final size:51
Alignment explanation
Indices: 24386317--24386413 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
24386307 CTTATTATAT
* *
24386317 TATATTTCATTATATTCTATTTATATATATT-TATTA-CATATTATATTTTAC
1 TATATATCATAATATT-TATTTATAT-TATTATATTATCATATTATATTTTAC
* *
24386368 TATATATCATAATATTTTTTTATATTATTATATTATTATATTATAT
1 TATATATCATAATATTTATTTATATTATTATATTATCATATTATAT
24386414 AATTTATATT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
49 4 0.10
50 13 0.32
51 23 0.57
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (51 bp):
TATATATCATAATATTTATTTATATTATTATATTATCATATTATATTTTAC
Found at i:24397804 original size:28 final size:28
Alignment explanation
Indices: 24397765--24397819 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
24397755 CAATCAAATA
24397765 TGGCACTCAGTGTACGAAATATTGAGAC
1 TGGCACTCAGTGTACGAAATATTGAGAC
* * *
24397793 TGGCACTTAGTGTGCGAGATATTGAGA
1 TGGCACTCAGTGTACGAAATATTGAGA
24397820 ACGAAACTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (28 bp):
TGGCACTCAGTGTACGAAATATTGAGAC
Found at i:24398282 original size:21 final size:22
Alignment explanation
Indices: 24398249--24398291 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
24398239 AAGAATGTAT
*
24398249 TATGATGTATGTGGAAATGAAA
1 TATGATGTATGTGCAAATGAAA
*
24398271 TATGAT-TATGTGCCAATGAAA
1 TATGATGTATGTGCAAATGAAA
24398292 CATAAATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.40, C:0.05, G:0.23, T:0.33
Consensus pattern (22 bp):
TATGATGTATGTGCAAATGAAA
Found at i:24407733 original size:70 final size:70
Alignment explanation
Indices: 24407620--24407759 Score: 280
Period size: 70 Copynumber: 2.0 Consensus size: 70
24407610 CTAAACGATA
24407620 ACTCAGGAAATTTTTAGGAAACTTAGAAAATTTTTCAAAATACAGGGGACAAACGCCTGTGTGGC
1 ACTCAGGAAATTTTTAGGAAACTTAGAAAATTTTTCAAAATACAGGGGACAAACGCCTGTGTGGC
24407685 CCGGC
66 CCGGC
24407690 ACTCAGGAAATTTTTAGGAAACTTAGAAAATTTTTCAAAATACAGGGGACAAACGCCTGTGTGGC
1 ACTCAGGAAATTTTTAGGAAACTTAGAAAATTTTTCAAAATACAGGGGACAAACGCCTGTGTGGC
24407755 CCGGC
66 CCGGC
24407760 CGTGTATCTC
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (70 bp):
ACTCAGGAAATTTTTAGGAAACTTAGAAAATTTTTCAAAATACAGGGGACAAACGCCTGTGTGGC
CCGGC
Found at i:24411119 original size:18 final size:17
Alignment explanation
Indices: 24411079--24411119 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
24411069 CATGCCCGTA
*
24411079 TGGCCTACACGCCTGTG
1 TGGCCTACACGCCAGTG
*
24411096 TGGCCTACACGCCCAGTT
1 TGGCCTACACG-CCAGTG
24411114 TGGCCT
1 TGGCCT
24411120 TGCCCGTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.12, C:0.37, G:0.27, T:0.24
Consensus pattern (17 bp):
TGGCCTACACGCCAGTG
Found at i:24415726 original size:12 final size:12
Alignment explanation
Indices: 24415709--24415742 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
24415699 TTTCCAAGAG
24415709 AAATAAAATAAA
1 AAATAAAATAAA
*
24415721 AAATAAAATAAC
1 AAATAAAATAAA
24415733 AAA-AAAATAA
1 AAATAAAATAA
24415743 TTATATACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (12 bp):
AAATAAAATAAA
Found at i:24424015 original size:56 final size:56
Alignment explanation
Indices: 24423929--24424048 Score: 224
Period size: 56 Copynumber: 2.1 Consensus size: 56
24423919 ACAAGGGATG
24423929 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAA-AATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAAT-GAAAGAATAAAATAAGAAGC
24423985 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGAAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGAAAGAATAAAATAAGAAGC
24424041 ATGGGCAA
1 ATGGGCAA
24424049 TAAACTAATA
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
55 4 0.06
56 59 0.94
ACGTcount: A:0.46, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGAAAGAATAAAATAAGAAGC
Found at i:24425370 original size:40 final size:40
Alignment explanation
Indices: 24425178--24425363 Score: 205
Period size: 40 Copynumber: 4.7 Consensus size: 40
24425168 TCGAATGATG
* * * * *
24425178 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTTACTAAA
* ** * *
24425218 TCCGGACTAAGATTCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAAA
* *
24425258 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAAA
* *
24425298 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTA-AA
*
24425339 -CCGGGCTATGACCCGAAGGCATTTG
1 TCCGGGCTAAGACCCGAAGGCATTTG
24425364 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
40 115 0.93
41 9 0.07
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:24425370 original size:80 final size:79
Alignment explanation
Indices: 24425232--24425396 Score: 199
Period size: 80 Copynumber: 2.1 Consensus size: 79
24425222 GACTAAGATT
* * **
24425232 CGAAGGCATTTGTGCGAGATACTAATTCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CTA
1 CGAAGGCATTTGTGCGAGATACTAATACCGGACTAAGACCCGAAGGCATTTGAACGAG-TAGCTA
*
24425296 AATCCGGGTTAAGTCC
65 AATCC-GGTTAAATCC
* * *
24425312 CGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGACCCGAAGGCATTTGAACGAGTAGCTA
1 CGAAGGCATTTGTGCGAGATACTAAT-ACCGGACTAAGACCCGAAGGCATTTGAACGAGTAGCTA
* *
24425376 TATCCGGTTAAATTC
65 AATCCGGTTAAATCC
24425391 CGAAGG
1 CGAAGG
24425397 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
79 18 0.25
80 55 0.75
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (79 bp):
CGAAGGCATTTGTGCGAGATACTAATACCGGACTAAGACCCGAAGGCATTTGAACGAGTAGCTAA
ATCCGGTTAAATCC
Found at i:24427098 original size:21 final size:21
Alignment explanation
Indices: 24427060--24427104 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
24427050 GTGAGGGTCT
*
24427060 ACACGCCCATGCGGAGGCCAC
1 ACACGCCCATGCGAAGGCCAC
* * *
24427081 ACACTCCCATGTGAAGGCCCC
1 ACACGCCCATGCGAAGGCCAC
24427102 ACA
1 ACA
24427105 TGACCGTGTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.42, G:0.22, T:0.09
Consensus pattern (21 bp):
ACACGCCCATGCGAAGGCCAC
Found at i:24429159 original size:17 final size:16
Alignment explanation
Indices: 24429136--24429176 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
24429126 AAAAAATGCT
*
24429136 TAAAATAAAATATGTA
1 TAAAATAAAATATGAA
*
24429152 TAATAATATAATATGAA
1 TAA-AATAAAATATGAA
24429169 TAAAATAA
1 TAAAATAA
24429177 GGAAATATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
TAAAATAAAATATGAA
Found at i:24429736 original size:21 final size:22
Alignment explanation
Indices: 24429706--24429748 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
24429696 CATTAAAGCT
24429706 AAATTAAAAAATA-AATAAAATG
1 AAATTAAAAAATATAA-AAAATG
24429728 AAATT-AAAAATATAAAAAATG
1 AAATTAAAAAATATAAAAAATG
24429749 CAAGAGGACC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (22 bp):
AAATTAAAAAATATAAAAAATG
Found at i:24431353 original size:175 final size:175
Alignment explanation
Indices: 24431150--24431771 Score: 1041
Period size: 175 Copynumber: 3.6 Consensus size: 175
24431140 TGAAGGTTAG
* * *
24431150 ATCTGCTATGTATTCGATTTGTTCCTTGTAAACACAAGAATGTCAAATCATCTTTGATCTGCTTC
1 ATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTC
* *
24431215 AATATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCATCGAAATGGAGATTCCAGAT
66 AGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATTCCAGAT
* *
24431280 CTGTTCTCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTTAA
131 CTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAA
* *
24431325 ATATGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTC
1 ATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTC
*
24431390 AGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCTGTCGAAATGGAGATGT-CAGA
66 AGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGAT-TCCAGA
24431454 TCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAA
130 TCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAA
* *
24431500 ATCTACTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGTTCTGCTTC
1 ATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTC
* * *
24431565 AGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATAGATATGCCAGAT
66 AGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATTCCAGAT
24431630 CTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAA
131 CTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAA
*
24431675 ATCTGCTATGTCTTCTATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTC
1 ATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTC
** *
24431740 AGTATAAACA-CATGAAGGCCAGATCTGTTATG
66 AGTATAAACATC-TGAAGGTTAGATCTGCTATG
24431772 CTTTGGTCTG
Statistics
Matches: 420, Mismatches: 24, Indels: 6
0.93 0.05 0.01
Matches are distributed among these distances:
174 1 0.00
175 418 1.00
176 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.34
Consensus pattern (175 bp):
ATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTC
AGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATTCCAGAT
CTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAA
Found at i:24444098 original size:14 final size:15
Alignment explanation
Indices: 24444053--24444111 Score: 59
Period size: 16 Copynumber: 3.9 Consensus size: 15
24444043 AGTAAAAACG
*
24444053 AATATATACATAATAA
1 AATATATATATAA-AA
24444069 AATATATATATAAAA
1 AATATATATATAAAA
24444084 AAT-TATATA-AGAAA
1 AATATATATATA-AAA
*
24444098 AATAAATATTATAA
1 AATATATA-TATAA
24444112 GGAATGTTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
13 1 0.03
14 12 0.32
15 8 0.22
16 15 0.41
17 1 0.03
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (15 bp):
AATATATATATAAAA
Found at i:24444547 original size:21 final size:22
Alignment explanation
Indices: 24444517--24444559 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
24444507 CATTAAAGCT
24444517 AAATTAAAAAATA-AATAAAATG
1 AAATTAAAAAATATAA-AAAATG
24444539 AAATT-AAAAATATAAAAAATG
1 AAATTAAAAAATATAAAAAATG
24444560 CAAGAGGACC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (22 bp):
AAATTAAAAAATATAAAAAATG
Found at i:24457396 original size:49 final size:47
Alignment explanation
Indices: 24457175--24457714 Score: 724
Period size: 47 Copynumber: 11.6 Consensus size: 47
24457165 CCCTTCGGGA
* * * * * *
24457175 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
24457222 CCTGTCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24457269 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24457316 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24457363 CTTATCACATATATATACACTTTCCCATTCATCACATCGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
24457412 CTTATCACATATATATACACTTTCGCATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24457461 CTTATCACATATATACACTTTCGCATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24457508 CTTATCACATATAT--A----CAC-TT--T-A-ATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24457544 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24457591 CTTATCACATATATATACAATTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24457640 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24457689 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
24457715 CACAATTATC
Statistics
Matches: 447, Mismatches: 31, Indels: 30
0.88 0.06 0.06
Matches are distributed among these distances:
36 27 0.06
37 1 0.00
38 2 0.00
40 2 0.00
41 2 0.00
42 3 0.01
43 2 0.00
45 2 0.00
46 1 0.00
47 221 0.49
49 184 0.41
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:24457492 original size:25 final size:25
Alignment explanation
Indices: 24457422--24457495 Score: 75
Period size: 25 Copynumber: 3.1 Consensus size: 25
24457412 CTTATCACAT
24457422 ATATATACACTTTCGCATTCATCAC
1 ATATATACACTTTCGCATTCATCAC
** * *
24457447 AT-T-GGC-CATTCGGCCTT-ATCAC
1 ATATATACACTTTC-GCATTCATCAC
24457469 ATATATACACTTTCGCATTCATCAC
1 ATATATACACTTTCGCATTCATCAC
24457494 AT
1 AT
24457496 CGGCTATTAG
Statistics
Matches: 36, Mismatches: 8, Indels: 10
0.67 0.15 0.19
Matches are distributed among these distances:
22 11 0.31
23 6 0.17
24 6 0.17
25 13 0.36
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.35
Consensus pattern (25 bp):
ATATATACACTTTCGCATTCATCAC
Found at i:24457534 original size:36 final size:36
Alignment explanation
Indices: 24457494--24457564 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
24457484 CATTCATCAC
*
24457494 ATCGGCTATTAGGCCTTATCACATATATACACTTTA
1 ATCGGCCATTAGGCCTTATCACATATATACACTTTA
24457530 ATCGGCCATTAGGCCTTATCACATATATACACTTT
1 ATCGGCCATTAGGCCTTATCACATATATACACTTT
24457565 CACATTCATC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (36 bp):
ATCGGCCATTAGGCCTTATCACATATATACACTTTA
Found at i:24457586 original size:179 final size:181
Alignment explanation
Indices: 24457175--24457703 Score: 710
Period size: 192 Copynumber: 2.9 Consensus size: 181
24457165 CCCTTCGGGA
* * * * * * * *
24457175 CTTATCAC-ATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATA
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
* *
24457237 CATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC-ATATATACACTTTCACATTCATCA
66 CAATTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCA
*
24457301 CATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 CATCGGCCATTAGGCCTTATCACATATAT--A----CAC-TT--T-A-ATCGGCCATTAGGC
* *
24457363 CTTATCACATATATATACACTTTCCCATTCATCACATCGGCCATTCGGCCTTATCACATATATAT
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
* * * * *
24457428 ACACTTTCGCATTCATCACATTGGCCATTCGGCCTTATCAC-ATATATACACTTTCGCATTCATC
65 ACAATTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATC
*
24457492 ACATCGGCTATTAGGCCTTATCACATATATACACTTTAATCGGCCATTAGGC
130 ACATCGGCCATTAGGCCTTATCACATATATACACTTTAATCGGCCATTAGGC
24457544 CTTATCAC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
24457608 CAATTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
66 CAATTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATC
* *
24457673 ACATTGGCCATTCGGCCTTATCACATATATA
130 ACATCGGCCATTAGGCCTTATCACATATATA
24457704 TACATTCACA
Statistics
Matches: 311, Mismatches: 24, Indels: 19
0.88 0.07 0.05
Matches are distributed among these distances:
179 90 0.29
181 72 0.23
182 1 0.00
183 1 0.00
185 2 0.01
186 3 0.01
188 8 0.03
190 40 0.13
192 94 0.30
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (181 bp):
CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
CAATTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCA
CATCGGCCATTAGGCCTTATCACATATATACACTTTAATCGGCCATTAGGC
Found at i:24457589 original size:83 final size:86
Alignment explanation
Indices: 24457443--24457703 Score: 332
Period size: 83 Copynumber: 2.9 Consensus size: 86
24457433 TTCGCATTCA
* * *
24457443 TCACATT-GGCCATTCGGCCTTATCACATATATACACTTTCGCATTCATCACATCGGCTATTAGG
1 TCACATTCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
*
24457507 CCTTATCACATATATACACTT
66 CCTTATCACATATATACAATT
24457528 T-A-A-TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
1 TCACATTCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
24457590 CCTTATCACATATATATACAATT
66 CCTTATCAC--ATATATACAATT
*
24457613 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATT
1 T--CA--CAT----TCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATC
*
24457678 GGCCATTCGGCCTTATCACATATATA
56 GGCCATTAGGCCTTATCACATATATA
24457704 TACATTCACA
Statistics
Matches: 154, Mismatches: 6, Indels: 21
0.85 0.03 0.12
Matches are distributed among these distances:
82 1 0.01
83 64 0.42
84 1 0.01
85 13 0.08
88 1 0.01
91 1 0.01
96 28 0.18
98 45 0.29
ACGTcount: A:0.30, C:0.28, G:0.10, T:0.33
Consensus pattern (86 bp):
TCACATTCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
CCTTATCACATATATACAATT
Found at i:24457663 original size:98 final size:94
Alignment explanation
Indices: 24457530--24457714 Score: 316
Period size: 98 Copynumber: 1.9 Consensus size: 94
24457520 ATACACTTTA
24457530 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
24457595 TCACATATATATACAATTTCACATTCATCAC
66 TCACATATATATAC-A-TTCACATTCATCAC
* *
24457626 ATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCT
1 ATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
24457691 TATCACATATATATACATTCACAT
64 TATCACATATATATACATTCACAT
24457715 CACAATTATC
Statistics
Matches: 85, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
96 29 0.34
97 1 0.01
98 55 0.65
ACGTcount: A:0.31, C:0.28, G:0.09, T:0.33
Consensus pattern (94 bp):
ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
TCACATATATATACATTCACATTCATCAC
Found at i:24464130 original size:26 final size:26
Alignment explanation
Indices: 24464099--24464206 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
24464089 TGAAATGCCC
*
24464099 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
24464125 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
24464151 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
24464177 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
24464203 ATCA
1 ATCA
24464207 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:24471062 original size:26 final size:26
Alignment explanation
Indices: 24471031--24471138 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
24471021 TGAAATGCCC
*
24471031 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
24471057 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
24471083 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
24471109 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
24471135 ATCA
1 ATCA
24471139 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:24494187 original size:13 final size:13
Alignment explanation
Indices: 24494169--24494194 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24494159 CAGGACTCTG
24494169 ATTATCTGTATCT
1 ATTATCTGTATCT
24494182 ATTATCTGTATCT
1 ATTATCTGTATCT
24494195 GAGTAAGACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.08, T:0.54
Consensus pattern (13 bp):
ATTATCTGTATCT
Found at i:24504755 original size:27 final size:27
Alignment explanation
Indices: 24504725--24504778 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
24504715 ATATATAATT
24504725 ATTA-TAAAATAGTTAAATTGTACTTAA
1 ATTATTAAAAT-GTTAAATTGTACTTAA
* * *
24504752 ATTATTAACATGTTTAATTTTACTTAA
1 ATTATTAAAATGTTAAATTGTACTTAA
24504779 TTTTATAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 18 0.78
28 5 0.22
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.46
Consensus pattern (27 bp):
ATTATTAAAATGTTAAATTGTACTTAA
Found at i:24519802 original size:23 final size:24
Alignment explanation
Indices: 24519776--24519822 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
24519766 ATGATTTATA
*
24519776 CTATGA-TTAATTGTTTTAAAATG
1 CTATGAGTTAATGGTTTTAAAATG
24519799 CTATGATGTTAATGGTTTTAAAAT
1 CTATGA-GTTAATGGTTTTAAAAT
24519823 TGTACGGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.29
25 15 0.71
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
CTATGAGTTAATGGTTTTAAAATG
Found at i:24520768 original size:16 final size:16
Alignment explanation
Indices: 24520747--24520787 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
24520737 GACACAAATT
24520747 AGAAAGAAAGAAAAAG
1 AGAAAGAAAGAAAAAG
**
24520763 AGAAAGAAAGAAAGGG
1 AGAAAGAAAGAAAAAG
24520779 AGAAAGAAA
1 AGAAAGAAA
24520788 AAACCCACGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (16 bp):
AGAAAGAAAGAAAAAG
Found at i:24521230 original size:7 final size:7
Alignment explanation
Indices: 24521220--24521245 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
24521210 TTAAATTTTA
24521220 AATATTC
1 AATATTC
24521227 AATATTC
1 AATATTC
24521234 AATATTC
1 AATATTC
24521241 AATAT
1 AATAT
24521246 GAAATTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (7 bp):
AATATTC
Found at i:24530404 original size:18 final size:18
Alignment explanation
Indices: 24530381--24530419 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
24530371 ATAAAACATC
24530381 ATCAATGACAAATTTTTT
1 ATCAATGACAAATTTTTT
24530399 ATCAATGACAAATTTTTT
1 ATCAATGACAAATTTTTT
24530417 ATC
1 ATC
24530420 TTTAAGTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.13, G:0.05, T:0.44
Consensus pattern (18 bp):
ATCAATGACAAATTTTTT
Found at i:24544479 original size:96 final size:95
Alignment explanation
Indices: 24544315--24544641 Score: 325
Period size: 96 Copynumber: 3.4 Consensus size: 95
24544305 AAGAGGGTGA
* * * *
24544315 ATTGCCGATACCATGTTCTAAACATGGTCTTACACTGGCTCAT-ATG-TCGAGGCCGATGCCATG
1 ATTGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTC-TCATGAT-GTGGCCGATGCCATG
24544378 TCCCAGACATGGTCTTACACTAGCTCTCGTCTC
64 TCCCAGACATGGTCTTACACTAGCTCTC-TCTC
*
24544411 ATTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGATGTGGCCGATGCCATGTC
1 ATTGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGATGTGGCCGATGCCATGTC
* * * *
24544476 CCAGACATGGTTTTACACTAGCGCACATATC
66 CCAGACATGGTCTTACACTAGCTCTC-TCTC
*** * ** ** * * * *
24544507 AACACCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACAACATCGCGGATGTCATGTT
1 ATTGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGATGTGGCCGATGCCATGTC
* * * *
24544572 CCAAACATGGTCTTACATTGGCTCTCACATC
66 CCAGACATGGTCTTACACTAGCTCTCTC-TC
* * * * *
24544603 GTAGCCGATGCCATGTCCCAAACATAGTATTATACTGGC
1 ATTGCCGATGCCATGTCCCAAACATGGTCTTACACTGGC
24544642 ACACATATCA
Statistics
Matches: 189, Mismatches: 39, Indels: 6
0.81 0.17 0.03
Matches are distributed among these distances:
95 1 0.01
96 187 0.99
97 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (95 bp):
ATTGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGATGTGGCCGATGCCATGTC
CCAGACATGGTCTTACACTAGCTCTCTCTC
Found at i:24544570 original size:48 final size:48
Alignment explanation
Indices: 24544318--24544627 Score: 286
Period size: 48 Copynumber: 6.5 Consensus size: 48
24544308 AGGGTGAATT
* * * * ** *
24544318 GCCGATACCATGTTCTAAACATGGTCTTACACTGGCTCAT-ATGTCGA-G
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTC-TCACATC-ATC
* * *
24544366 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTC-TCATT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTC-ACATCATC
* * * * *
24544414 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGAT-GTG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCA-CATCATC
* * * * * *
24544462 GCCGATGCCATGTCCCAGACATGGTTTTACACTAGCGCACATATCAAC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACATCATC
* *
24544510 ACCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACAACATC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACATCATC
* * * * * * *
24544558 GCGGATGTCATGTTCCAAACATGGTCTTACATTGGCTCTCACATCGTA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACATCATC
24544606 GCCGATGCCATGTCCCAAACAT
1 GCCGATGCCATGTCCCAAACAT
24544628 AGTATTATAC
Statistics
Matches: 215, Mismatches: 41, Indels: 12
0.80 0.15 0.04
Matches are distributed among these distances:
47 4 0.02
48 210 0.98
49 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACATCATC
Found at i:24544580 original size:144 final size:144
Alignment explanation
Indices: 24544367--24544651 Score: 385
Period size: 144 Copynumber: 2.0 Consensus size: 144
24544357 TATGTCGAGG
* * * * *
24544367 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCATTGCCGATGCCATGTCCCAG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGACACATCGCCGATGCCATGTCCCAA
* * * * *
24544432 ACATGGTCTTACACTGGCTCTCATGAT-GTGGCCGATGCCATGTCCCAGACATGGTTTTACACTA
66 ACATGGTCTTACACTGGCTCTCA-CATCGTAGCCGATGCCATGTCCCAAACATAGTATTACACTA
*
24544496 GCGCACATATCAACA
130 GCACACATATCAACA
* * *
24544511 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTC-ACAACATCGCGGATGTCATGTTCCA
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGAC-ACATCGCCGATGCCATGTCCCA
* * *
24544575 AACATGGTCTTACATTGGCTCTCACATCGTAGCCGATGCCATGTCCCAAACATAGTATTATACTG
65 AACATGGTCTTACACTGGCTCTCACATCGTAGCCGATGCCATGTCCCAAACATAGTATTACACTA
24544640 GCACACATATCA
130 GCACACATATCA
24544652 CCCAAATGTC
Statistics
Matches: 122, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
143 3 0.02
144 119 0.98
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (144 bp):
CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGACACATCGCCGATGCCATGTCCCAA
ACATGGTCTTACACTGGCTCTCACATCGTAGCCGATGCCATGTCCCAAACATAGTATTACACTAG
CACACATATCAACA
Found at i:24547953 original size:11 final size:11
Alignment explanation
Indices: 24547934--24547969 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
24547924 CTTTTGATGG
*
24547934 AAAATAAAAGA
1 AAAAGAAAAGA
*
24547945 AAAAGAAAAAA
1 AAAAGAAAAGA
24547956 AAAAGAAAAGA
1 AAAAGAAAAGA
24547967 AAA
1 AAA
24547970 GAAGGAAAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (11 bp):
AAAAGAAAAGA
Found at i:24547958 original size:16 final size:16
Alignment explanation
Indices: 24547934--24547969 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
24547924 CTTTTGATGG
*
24547934 AAAATAAAAGAAAAAGA
1 AAAAAAAAAG-AAAAGA
24547951 AAAAAAAAAGAAAAGA
1 AAAAAAAAAGAAAAGA
24547967 AAA
1 AAA
24547970 GAAGGAAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (16 bp):
AAAAAAAAAGAAAAGA
Found at i:24549779 original size:22 final size:22
Alignment explanation
Indices: 24549754--24549798 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
24549744 TATTATTTAA
24549754 ATTTAATTAATTTTTTAAA-AAT
1 ATTTAATTAA-TTTTTAAATAAT
*
24549776 ATTTTATTAATTTTTAAATAAT
1 ATTTAATTAATTTTTAAATAAT
24549798 A
1 A
24549799 AATGAGCCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
ATTTAATTAATTTTTAAATAAT
Found at i:24552977 original size:18 final size:19
Alignment explanation
Indices: 24552956--24552994 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
24552946 CTAAAAAATT
24552956 AAATGAAATGA-AAATAAA
1 AAATGAAATGAGAAATAAA
* *
24552974 AAATTAAATGAGTAATAAA
1 AAATGAAATGAGAAATAAA
24552993 AA
1 AA
24552995 CATAGCATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (19 bp):
AAATGAAATGAGAAATAAA
Found at i:24554670 original size:93 final size:93
Alignment explanation
Indices: 24554511--24554682 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
24554501 CGCCCATAAG
*
24554511 CGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
24554576 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGAATGCCTAGTTACATCTCA
*
24554604 CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
24554668 AACGAGTTCGAATGC
65 AACGAGTTCGAATGC
24554683 TCAATCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGAATGCCTAGTTACATCTCA
Found at i:24554677 original size:46 final size:46
Alignment explanation
Indices: 24554504--24554677 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
24554494 TGTAACCCGC
* *
24554504 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
24554550 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
24554600 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
24554643 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCG
24554678 AATGCTCAAT
Statistics
Matches: 109, Mismatches: 9, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 59 0.54
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:24554698 original size:46 final size:46
Alignment explanation
Indices: 24554507--24554698 Score: 143
Period size: 46 Copynumber: 4.2 Consensus size: 46
24554497 AACCCGCCCA
* * * *
24554507 TAAGCGAACTCGGACTCAACTCAACGAGCTC--AGGCGTTC-GCATCC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAATGC--TCATCATCC
*
24554552 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTACAT-C
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGAATGCTC-A--T-CATCC
* * *
24554601 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACAT--TC-GCATCC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GA-ATGCTCATCATCC
24554645 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGAATGCTCAATCATCC
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGAATGCTC-ATCATCC
24554693 T-AGTGA
1 TAAGTGA
24554699 CATGTCACTT
Statistics
Matches: 118, Mismatches: 11, Indels: 34
0.72 0.07 0.21
Matches are distributed among these distances:
43 3 0.03
44 3 0.03
45 5 0.04
46 62 0.53
47 27 0.23
48 12 0.10
49 3 0.03
50 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGAATGCTCATCATCC
Found at i:24563259 original size:27 final size:28
Alignment explanation
Indices: 24563211--24563266 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
24563201 CTTCATTTAC
*
24563211 TAAAAAAAACATATCAAGTAT-ATTAAAT
1 TAAAAAAAACATA-CAAATATAATTAAAT
24563239 TAAAAAAATACATA-AAATATAATTAAAT
1 TAAAAAAA-ACATACAAATATAATTAAAT
24563267 AAACAAACCC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 5 0.20
28 15 0.60
29 5 0.20
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (28 bp):
TAAAAAAAACATACAAATATAATTAAAT
Found at i:24564767 original size:92 final size:92
Alignment explanation
Indices: 24564610--24564794 Score: 361
Period size: 92 Copynumber: 2.0 Consensus size: 92
24564600 ATGAACGCCA
*
24564610 TATTATATATTTGAATCACATTTTATGTTACTAATCCAATTATTTTCTTGGAATTATTTCATGGG
1 TATTATATATTTGAATCACATTTTATGTTACTAATCCAATTATTTTCTGGGAATTATTTCATGGG
24564675 AGTTAGTTTGAAAGTGGTAATTTATGG
66 AGTTAGTTTGAAAGTGGTAATTTATGG
24564702 TATTATATATTTGAATCACATTTTATGTTACTAATCCAATTATTTTCTGGGAATTATTTCATGGG
1 TATTATATATTTGAATCACATTTTATGTTACTAATCCAATTATTTTCTGGGAATTATTTCATGGG
24564767 AGTTAGTTTGAAAGTGGTAATTTATGG
66 AGTTAGTTTGAAAGTGGTAATTTATGG
24564794 T
1 T
24564795 GAATCTTCAG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 92 1.00
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.46
Consensus pattern (92 bp):
TATTATATATTTGAATCACATTTTATGTTACTAATCCAATTATTTTCTGGGAATTATTTCATGGG
AGTTAGTTTGAAAGTGGTAATTTATGG
Found at i:24566268 original size:3 final size:3
Alignment explanation
Indices: 24566260--24566296 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
24566250 AGTAAAATTT
*
24566260 ATA ATA ATA ATA ATA ATA ATA ATA ATG ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
24566297 ATCTACTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:24570863 original size:26 final size:26
Alignment explanation
Indices: 24570834--24570929 Score: 66
Period size: 26 Copynumber: 3.5 Consensus size: 26
24570824 TTATATTAAG
24570834 AATTTTATTAAATTATATTTAATAAT
1 AATTTTATTAAATTATATTTAATAAT
* * * **
24570860 AATTATGTTAAAATATGGTTAACTTATTTATT
1 AATTTTATTAAATTATATTTAA--TA---A-T
* *
24570892 ATTTTTATTAAATTATTTTTAATAAT
1 AATTTTATTAAATTATATTTAATAAT
*
24570918 AATCTTATTAAA
1 AATTTTATTAAA
24570930 ATTTAATAAC
Statistics
Matches: 51, Mismatches: 13, Indels: 12
0.67 0.17 0.16
Matches are distributed among these distances:
26 28 0.55
27 1 0.02
28 2 0.04
30 2 0.04
31 1 0.02
32 17 0.33
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (26 bp):
AATTTTATTAAATTATATTTAATAAT
Found at i:24572035 original size:20 final size:21
Alignment explanation
Indices: 24572010--24572064 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
24572000 ATAAATTTTT
*
24572010 TAATAATTTATTTAAA-TAAA
1 TAATAATTAATTTAAATTAAA
24572030 TAATAATTAATTTCAAATTAAA
1 TAATAATTAATTT-AAATTAAA
24572052 -AAT-ATTAATTTAA
1 TAATAATTAATTTAA
24572065 GTAATTAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
19 2 0.06
20 20 0.62
21 6 0.19
22 4 0.12
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
TAATAATTAATTTAAATTAAA
Found at i:24573139 original size:7 final size:7
Alignment explanation
Indices: 24573127--24573152 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
24573117 TTTTGAAACA
24573127 TTAAATT
1 TTAAATT
24573134 TTAAATT
1 TTAAATT
24573141 TTAAATT
1 TTAAATT
24573148 TTAAA
1 TTAAA
24573153 ACTTCAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
TTAAATT
Found at i:24585403 original size:28 final size:27
Alignment explanation
Indices: 24585360--24585457 Score: 83
Period size: 28 Copynumber: 3.4 Consensus size: 27
24585350 GAAATCAGAG
24585360 TTAA-CTGGGCCTTAGCCCATATCAATA
1 TTAATCTGGGCC-TAGCCCATATCAATA
*
24585387 TTAATCTGGGCCATAGCCCCT-TACAATA
1 TTAATCTGGGCC-TAGCCCATAT-CAATA
*
24585415 TCATAGTATACTGGGCCTAGCCCATATCAGTA
1 T--TA--AT-CTGGGCCTAGCCCATATCAATA
*
24585447 TCAATCTGGGC
1 TTAATCTGGGC
24585458 TGTAGCCCTA
Statistics
Matches: 58, Mismatches: 5, Indels: 16
0.73 0.06 0.20
Matches are distributed among these distances:
27 11 0.19
28 22 0.38
30 3 0.05
32 14 0.24
33 8 0.14
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.29
Consensus pattern (27 bp):
TTAATCTGGGCCTAGCCCATATCAATA
Found at i:24585490 original size:60 final size:60
Alignment explanation
Indices: 24585353--24585504 Score: 157
Period size: 60 Copynumber: 2.5 Consensus size: 60
24585343 CTATTCAGAA
* *
24585353 ATCAGAGT-TAACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAAT
1 ATCAGAGTAT-ACTGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAAT
* * **
24585414 ATCATAGTATACTGGGCCTAGCCCATATCAGTATCAATCTGGGCTGTAGCCCTATTACAA-
1 ATCAGAGTATACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTACAAT
* * * *
24585474 GTC-GAGATATATTGGGCATTGCCCATATCAA
1 ATCAGAG-TATACTGGGCCTAGCCCATATCAA
24585505 CACAGTTGGC
Statistics
Matches: 76, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
59 2 0.03
60 52 0.68
61 21 0.28
62 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (60 bp):
ATCAGAGTATACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAAT
Found at i:24586833 original size:22 final size:22
Alignment explanation
Indices: 24586807--24586848 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
24586797 TACGAGGGAA
24586807 AAAAGAAAAGATGAAAGAAAAG
1 AAAAGAAAAGATGAAAGAAAAG
* *
24586829 AAAAGAAAATATGAACGAAA
1 AAAAGAAAAGATGAAAGAAA
24586849 GAGAGGGGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.71, C:0.02, G:0.19, T:0.07
Consensus pattern (22 bp):
AAAAGAAAAGATGAAAGAAAAG
Found at i:24590766 original size:45 final size:46
Alignment explanation
Indices: 24590699--24590822 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
24590689 CATATGACCT
*
24590699 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
24590742 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
24590788 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
24590823 CACTTATCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 21 0.28
46 41 0.55
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
Found at i:24590805 original size:46 final size:45
Alignment explanation
Indices: 24590699--24590933 Score: 207
Period size: 37 Copynumber: 5.8 Consensus size: 45
24590689 CATATGACCT
*
24590699 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
24590742 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
24590788 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
24590825 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
24590862 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
24590899 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
24590934 CACTTATCAC
Statistics
Matches: 177, Mismatches: 7, Indels: 18
0.88 0.03 0.09
Matches are distributed among these distances:
37 101 0.57
39 2 0.01
40 3 0.02
42 1 0.01
43 9 0.05
44 6 0.03
45 21 0.12
46 34 0.19
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:24590826 original size:37 final size:37
Alignment explanation
Indices: 24590784--24590960 Score: 300
Period size: 37 Copynumber: 4.8 Consensus size: 37
24590774 AGCTGAAGCT
* **
24590784 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
* *
24590821 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
24590858 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
24590895 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
24590932 GCCACTTATCACTTTGTTTCTTGATCAGA
1 ACCACTTATCACTTTGTTTCTTGATCAGA
24590961 AGTACTCAAA
Statistics
Matches: 134, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:24598458 original size:45 final size:46
Alignment explanation
Indices: 24598391--24598514 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
24598381 CATATGACCT
*
24598391 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
24598434 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
24598480 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
24598515 CACTTATCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 21 0.28
46 41 0.55
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
Found at i:24598497 original size:46 final size:45
Alignment explanation
Indices: 24598391--24598625 Score: 207
Period size: 37 Copynumber: 5.8 Consensus size: 45
24598381 CATATGACCT
*
24598391 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
24598434 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
24598480 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
24598517 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
24598554 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
24598591 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
24598626 CACTTATCAC
Statistics
Matches: 177, Mismatches: 7, Indels: 18
0.88 0.03 0.09
Matches are distributed among these distances:
37 101 0.57
39 2 0.01
40 3 0.02
42 1 0.01
43 9 0.05
44 6 0.03
45 21 0.12
46 34 0.19
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:24598518 original size:37 final size:37
Alignment explanation
Indices: 24598476--24598652 Score: 300
Period size: 37 Copynumber: 4.8 Consensus size: 37
24598466 AGCTGAAGCT
* **
24598476 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
* *
24598513 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
24598550 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
24598587 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
24598624 GCCACTTATCACTTTGTTTCTTGATCAGA
1 ACCACTTATCACTTTGTTTCTTGATCAGA
24598653 AGTACTCAAA
Statistics
Matches: 134, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:24604335 original size:29 final size:29
Alignment explanation
Indices: 24604302--24604362 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
24604292 AATTGGTAAC
* *
24604302 TTAGTTTTAGTTTTAATAACTTCTTACGT
1 TTAGTTTTAGTTTCAATAACTTCTTACAT
24604331 TTAGTTTTAGTTTCAATAACTTCTTACAT
1 TTAGTTTTAGTTTCAATAACTTCTTACAT
24604360 TTA
1 TTA
24604363 ATTCTACATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.26, C:0.11, G:0.08, T:0.54
Consensus pattern (29 bp):
TTAGTTTTAGTTTCAATAACTTCTTACAT
Found at i:24611453 original size:27 final size:27
Alignment explanation
Indices: 24611394--24611454 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
24611384 AGCGAGTATG
24611394 GAATTAAGAAATAAAAATATTGATAATT
1 GAATT-AGAAATAAAAATATTGATAATT
* * *
24611422 AAATTAGAAATAAAATTATTTAGTAA-T
1 GAATTAGAAATAAAAATATTGA-TAATT
24611449 GAATTA
1 GAATTA
24611455 AATAGAACAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
27 21 0.75
28 7 0.25
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.34
Consensus pattern (27 bp):
GAATTAGAAATAAAAATATTGATAATT
Found at i:24612921 original size:21 final size:20
Alignment explanation
Indices: 24612897--24612935 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
24612887 GAGTATTTTG
24612897 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
*
24612918 ATGTTTGATGATAGTTAT
1 ATGTTTAATGATAGTTAT
24612936 ACAAGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:24615076 original size:17 final size:17
Alignment explanation
Indices: 24615054--24615089 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
24615044 TATGTATATA
24615054 TAGGTGTGCATATAGCC
1 TAGGTGTGCATATAGCC
24615071 TAGGTGTGCATATAGCC
1 TAGGTGTGCATATAGCC
24615088 TA
1 TA
24615090 TGTTATGCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.31
Consensus pattern (17 bp):
TAGGTGTGCATATAGCC
Found at i:24616597 original size:14 final size:14
Alignment explanation
Indices: 24616580--24616610 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
24616570 ACATATAATT
24616580 TGGCCCAATCGGAA
1 TGGCCCAATCGGAA
24616594 TGGCCCAATCGGAA
1 TGGCCCAATCGGAA
24616608 TGG
1 TGG
24616611 TCCATTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.26, G:0.32, T:0.16
Consensus pattern (14 bp):
TGGCCCAATCGGAA
Found at i:24616701 original size:19 final size:19
Alignment explanation
Indices: 24616677--24616774 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
24616667 AATCTTTAAA
*
24616677 GATATGCAATCTTAGGTAT
1 GATATGCAATCTTAGATAT
24616696 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
24616715 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
24616732 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
24616751 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
24616772 GAT
1 GAT
24616775 CTTGTAATCT
Statistics
Matches: 74, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
17 17 0.23
19 48 0.65
21 9 0.12
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:24616713 original size:14 final size:15
Alignment explanation
Indices: 24616696--24616752 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
24616686 TCTTAGGTAT
24616696 GATATG-CAATCTTA
1 GATATGACAATCTTA
24616710 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
24616727 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
24616746 GATATGA
1 GATATGA
24616753 TATGCAATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.16
17 18 0.47
19 14 0.37
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:24616723 original size:36 final size:37
Alignment explanation
Indices: 24616677--24616774 Score: 144
Period size: 36 Copynumber: 2.6 Consensus size: 37
24616667 AATCTTTAAA
*
24616677 GATATGCAATCTTAGGTATGATATGCAATCTTAGATAT
1 GATA-GCAATCTTAGATATGATATGCAATCTTAGATAT
24616715 GATA-CAATCTTAGATATGATATGCAATCTTAGATAT
1 GATAGCAATCTTAGATATGATATGCAATCTTAGATAT
24616751 GATATGCAATCTTGAAGATATGAT
1 GATA-GCAATCTT--AGATATGAT
24616775 CTTGTAATCT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
36 35 0.64
38 11 0.20
40 9 0.16
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (37 bp):
GATAGCAATCTTAGATATGATATGCAATCTTAGATAT
Found at i:24623775 original size:19 final size:19
Alignment explanation
Indices: 24623753--24623795 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
24623743 TGAAGTTAAA
24623753 TTATTTAATCATTTTTATT
1 TTATTTAATCATTTTTATT
* *
24623772 TTATTTTATTATTTTTATT
1 TTATTTAATCATTTTTATT
24623791 TTATT
1 TTATT
24623796 CCTTTCTCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (19 bp):
TTATTTAATCATTTTTATT
Found at i:24625610 original size:21 final size:21
Alignment explanation
Indices: 24625571--24625610 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
24625561 AATTCCAATT
*
24625571 TAAGTTTTATTCGATTTATTC
1 TAAGTTTTATTCGACTTATTC
24625592 TAAGTTTTATTTCG-CTTAT
1 TAAGTTTTA-TTCGACTTAT
24625611 ATATATACGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.57
Consensus pattern (21 bp):
TAAGTTTTATTCGACTTATTC
Found at i:24643750 original size:18 final size:17
Alignment explanation
Indices: 24643723--24643757 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24643713 TATTATAATT
*
24643723 AAATAAAAATTCATTCA
1 AAATAAAAATTAATTCA
24643740 AAATGAAAAATTAATTCA
1 AAAT-AAAAATTAATTCA
24643758 GGTGATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.60, C:0.09, G:0.03, T:0.29
Consensus pattern (17 bp):
AAATAAAAATTAATTCA
Found at i:24644928 original size:23 final size:22
Alignment explanation
Indices: 24644880--24644938 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 22
24644870 CCAACCCAAA
24644880 TATATTATATTATAAAAATTAAT
1 TATATTA-ATTATAAAAATTAAT
* * *
24644903 TATATTAATTATATATATTTATT
1 TATATTAATTATA-AAAATTAAT
24644926 TATATTGAATTAT
1 TATATT-AATTAT
24644939 TAACCCAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 6 0.19
23 19 0.61
24 6 0.19
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
TATATTAATTATAAAAATTAAT
Found at i:24645164 original size:16 final size:16
Alignment explanation
Indices: 24645145--24645192 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
24645135 TACATTATAA
*
24645145 TTTTTAAAAAATTTAT
1 TTTTTAAAAAATTAAT
*
24645161 TTTTTAAATAAA-AAAT
1 TTTTTAAA-AAATTAAT
24645177 TATTTTAAAAAATTAA
1 T-TTTTAAAAAATTAA
24645193 ATATAGGCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 14 0.54
17 12 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTTTTAAAAAATTAAT
Found at i:24645946 original size:13 final size:13
Alignment explanation
Indices: 24645928--24645952 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24645918 ATTAGCTTGA
24645928 ATGAAACATGTTC
1 ATGAAACATGTTC
24645941 ATGAAACATGTT
1 ATGAAACATGTT
24645953 TCTGGTTGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGAAACATGTTC
Found at i:24646957 original size:22 final size:20
Alignment explanation
Indices: 24646918--24646954 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
24646908 TATTATATAT
24646918 AATATATTTTTTATATTAAC
1 AATATATTTTTTATATTAAC
24646938 AATATATTTTTTA-ATTA
1 AATATATTTTTTATATTA
24646955 TTATTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (20 bp):
AATATATTTTTTATATTAAC
Found at i:24647823 original size:29 final size:28
Alignment explanation
Indices: 24647762--24647834 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 28
24647752 AAGTATAAAA
*
24647762 ATAAAAAATTATTTAAAGTATTTAAAGT
1 ATAAAAAATTATTTAAAATATTTAAAGT
*
24647790 ATAAAAATATTTTTTAAAATATTTTAAA-T
1 ATAAAAA-ATTATTTAAAATA-TTTAAAGT
* *
24647819 TTAAAAAATTAATTAA
1 ATAAAAAATTATTTAA
24647835 TTACTAACAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
28 14 0.37
29 18 0.47
30 6 0.16
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (28 bp):
ATAAAAAATTATTTAAAATATTTAAAGT
Found at i:24649981 original size:13 final size:13
Alignment explanation
Indices: 24649963--24649989 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
24649953 CTTCGGCCAC
24649963 ACTTATCTGATCA
1 ACTTATCTGATCA
24649976 ACTTATCTGATCA
1 ACTTATCTGATCA
24649989 A
1 A
24649990 GGACAAGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.37
Consensus pattern (13 bp):
ACTTATCTGATCA
Found at i:24650089 original size:31 final size:31
Alignment explanation
Indices: 24650051--24650138 Score: 126
Period size: 31 Copynumber: 2.8 Consensus size: 31
24650041 GACAAATGAC
24650051 AAGTGAAAAGTGGTAGCTTTGGCTACCTGAT
1 AAGTGAAAAGTGGTAGCTTTGGCTACCTGAT
*
24650082 AAGTGAAAAGTCGTAGCTTCT-GCTACCTGAT
1 AAGTGAAAAGTGGTAGCTT-TGGCTACCTGAT
*
24650113 CAGTGAATAA-TGGTAGCTTTGGCTAC
1 AAGTGAA-AAGTGGTAGCTTTGGCTAC
24650139 AAGTGACAAG
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
30 1 0.02
31 47 0.92
32 3 0.06
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (31 bp):
AAGTGAAAAGTGGTAGCTTTGGCTACCTGAT
Found at i:24650238 original size:47 final size:46
Alignment explanation
Indices: 24650163--24650376 Score: 202
Period size: 47 Copynumber: 4.7 Consensus size: 46
24650153 AAGTGATTTC
* * *
24650163 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATA
* * * * *
24650209 CTGTATAAGACCATATCTGGGATACGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATA
* * *
24650256 CGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTA
1 CGTATAAGACCATAGCTGGGATATGGCATCG--GTGTGATATGTGA-TA
* * * *
24650305 CGTCTAAGACCATAGCTGGGCTATGGCATC-G-AT-ATATG-AATA
1 CGTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATA
* * *
24650347 TGTGTAAGACCATAGCTGGGCTATGGCATC
1 CGTATAAGACCATAGCTGGGATATGGCATC
24650377 ATTATGTGAA
Statistics
Matches: 144, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
42 30 0.21
43 1 0.01
44 5 0.03
45 1 0.01
46 26 0.18
47 40 0.28
48 11 0.08
49 30 0.21
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (46 bp):
CGTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATA
Found at i:24650319 original size:49 final size:48
Alignment explanation
Indices: 24650167--24650420 Score: 209
Period size: 42 Copynumber: 5.6 Consensus size: 48
24650157 GATTTCCGTA
* * * * * * *
24650167 TAAGACCATATCTGGGATATGGCATCG--GTGTGATATATGCTACTGTA
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTC-GTG
* * * * *
24650214 TAAGACCATATCTGGGATACGGCATC-A-GTGAGATATGTGATTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTCGTG
*
24650260 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTC
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATT-CGTG
*
24650309 TAAGACCATAGCTGGGCTATGGCATCGATATATGA-A--T-A-T-GTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTCGTG
24650351 TAAGACCATAGCTGGGCTATGGCATC-ATTATGTGA-A---GA-T-GTG
1 TAAGACCATAGCTGGGCTATGGCATCGA-TATGTGATATGTGATTCGTG
* **
24650393 TAAGACCATAGTTGAACTATGGCATCGA
1 TAAGACCATAGCTGGGCTATGGCATCGA
24650421 GAAAACGAAG
Statistics
Matches: 182, Mismatches: 18, Indels: 18
0.83 0.08 0.08
Matches are distributed among these distances:
41 1 0.01
42 63 0.35
43 1 0.01
44 1 0.01
45 1 0.01
46 26 0.14
47 38 0.21
48 14 0.08
49 37 0.20
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (48 bp):
TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTCGTG
Found at i:24652127 original size:14 final size:14
Alignment explanation
Indices: 24652108--24652136 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
24652098 ATATCACATA
24652108 AATTTATTAATATT
1 AATTTATTAATATT
24652122 AATTTATTAATATT
1 AATTTATTAATATT
24652136 A
1 A
24652137 TATATGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
AATTTATTAATATT
Found at i:24652816 original size:25 final size:25
Alignment explanation
Indices: 24652763--24652821 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
24652753 CTTATTTCAT
* * *
24652763 TAAATAAA-AAATTTTAAAATATAA
1 TAAATAAATACATTTAAAAACATAA
24652787 TAAATCAAATACATTTAAAAACATAA
1 TAAAT-AAATACATTTAAAAACATAA
24652813 -AAATAAATA
1 TAAATAAATA
24652822 TTAAAACAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 10 0.33
25 7 0.23
26 13 0.43
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAATACATTTAAAAACATAA
Found at i:24654356 original size:17 final size:18
Alignment explanation
Indices: 24654319--24654357 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
24654309 TTCCCTTCTA
*
24654319 ATTTCTCACTCAAATTTT
1 ATTTCTCACTCAAACTTT
*
24654337 ATTTCTCTCTC-AACTTT
1 ATTTCTCACTCAAACTTT
24654354 ATTT
1 ATTT
24654358 TTTATTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTCTCACTCAAACTTT
Done.